basal gene expression level
Hi,
Scientists are interested in differentially expressed genes but also sometimes into basal gene expression levels.
Is it possible to determine these expression levels by using read counts from a RNA-Seq count table? if yes, is there an existing rule or threshold from which we can we that a gene is expressed or not?
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Francois Piumi •
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Francois Piumi •
1 answer
I haven't seen any reliable way to estimate absolute RNA concentrations from sequencing data. Methods have been developed using housekeeping genes (which are assumed to be of largely constant expression -- though this may not be the same thing as molarity) or spike-in controls. The commentary here: https://support.bioconductor.org/p/88413/ is always worth a read.
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